data_8S5K # _model_server_result.job_id JY2bdc-RmMV38wo7amyOmw _model_server_result.datetime_utc '2024-11-14 23:09:34' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 8s5k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":601}' # _entry.id 8S5K # _exptl.entry_id 8S5K _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8S5K _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8S5K _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A C VAL 119 A VAL 118 1_555 A N LLP 120 A LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C LLP 120 A LLP 119 1_555 A N ASP 121 A ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B C VAL 119 B VAL 118 1_555 B N LLP 120 B LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 B C LLP 120 B LLP 119 1_555 B N ASP 121 B ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 C C VAL 119 C VAL 118 1_555 C N LLP 120 C LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale6 C C LLP 120 C LLP 119 1_555 C N ASP 121 C ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 D C VAL 119 D VAL 118 1_555 D N LLP 120 D LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale8 D C LLP 120 D LLP 119 1_555 D N ASP 121 D ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 E C VAL 119 E VAL 118 1_555 E N LLP 120 E LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale10 E C LLP 120 E LLP 119 1_555 E N ASP 121 E ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale11 F C VAL 119 F VAL 118 1_555 F N LLP 120 F LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale12 F C LLP 120 F LLP 119 1_555 F N ASP 121 F ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale13 G C VAL 119 G VAL 118 1_555 G N LLP 120 G LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale14 G C LLP 120 G LLP 119 1_555 G N ASP 121 G ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale15 H C VAL 119 H VAL 118 1_555 H N LLP 120 H LLP 119 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale16 H C LLP 120 H LLP 119 1_555 H N ASP 121 H ASP 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 A NE2 HIS 66 A HIS 65 1_555 I FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc2 D NE2 HIS 66 D HIS 65 1_555 L FE HEM . D HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc3 E NE2 HIS 66 E HIS 65 1_555 M FE HEM . E HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc4 H NE2 HIS 66 H HIS 65 1_555 P FE HEM . H HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CHA C1A HEM sing 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 8S5K _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code I 2 HEM A 1 601 1549 HEM HEM . J 2 HEM B 1 601 1549 HEM HEM . K 2 HEM C 1 601 1549 HEM HEM . L 2 HEM D 1 601 1549 HEM HEM . M 2 HEM E 1 601 1549 HEM HEM . N 2 HEM F 1 601 1549 HEM HEM . O 2 HEM G 1 601 1549 HEM HEM . P 2 HEM H 1 601 1549 HEM HEM . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CHA HEM . . . N 2 187.943 212.123 269.268 1 27.78 ? CHA HEM 601 F 1 HETATM 2 C CHB HEM . . . N 2 183.886 209.642 270.172 1 27.78 ? CHB HEM 601 F 1 HETATM 3 C CHC HEM . . . N 2 181.444 213.801 269.765 1 27.78 ? CHC HEM 601 F 1 HETATM 4 C CHD HEM . . . N 2 185.174 215.513 267.22 1 27.78 ? CHD HEM 601 F 1 HETATM 5 C C1A HEM . . . N 2 187.093 211.12 269.673 1 27.78 ? C1A HEM 601 F 1 HETATM 6 C C2A HEM . . . N 2 187.466 209.852 270.259 1 27.78 ? C2A HEM 601 F 1 HETATM 7 C C3A HEM . . . N 2 186.349 209.166 270.506 1 27.78 ? C3A HEM 601 F 1 HETATM 8 C C4A HEM . . . N 2 185.22 209.972 270.09 1 27.78 ? C4A HEM 601 F 1 HETATM 9 C CMA HEM . . . N 2 186.278 207.757 271.129 1 27.78 ? CMA HEM 601 F 1 HETATM 10 C CAA HEM . . . N 2 188.907 209.378 270.537 1 27.78 ? CAA HEM 601 F 1 HETATM 11 C CBA HEM . . . N 2 189.509 208.836 269.245 1 27.78 ? CBA HEM 601 F 1 HETATM 12 C CGA HEM . . . N 2 190.958 208.491 269.462 1 27.78 ? CGA HEM 601 F 1 HETATM 13 O O1A HEM . . . N 2 191.609 208.018 268.497 1 27.78 ? O1A HEM 601 F 1 HETATM 14 O O2A HEM . . . N 2 191.464 208.689 270.597 1 27.78 ? O2A HEM 601 F 1 HETATM 15 C C1B HEM . . . N 2 182.853 210.554 270.17 1 27.78 ? C1B HEM 601 F 1 HETATM 16 C C2B HEM . . . N 2 181.465 210.291 270.483 1 27.78 ? C2B HEM 601 F 1 HETATM 17 C C3B HEM . . . N 2 180.788 211.446 270.376 1 27.78 ? C3B HEM 601 F 1 HETATM 18 C C4B HEM . . . N 2 181.73 212.473 269.986 1 27.78 ? C4B HEM 601 F 1 HETATM 19 C CMB HEM . . . N 2 180.919 208.901 270.873 1 27.78 ? CMB HEM 601 F 1 HETATM 20 C CAB HEM . . . N 2 179.282 211.719 270.592 1 27.78 ? CAB HEM 601 F 1 HETATM 21 C CBB HEM . . . N 2 178.383 210.734 270.678 1 27.78 ? CBB HEM 601 F 1 HETATM 22 C C1C HEM . . . N 2 182.241 214.658 269.042 1 27.78 ? C1C HEM 601 F 1 HETATM 23 C C2C HEM . . . N 2 181.947 216.033 268.691 1 27.78 ? C2C HEM 601 F 1 HETATM 24 C C3C HEM . . . N 2 182.985 216.505 267.988 1 27.78 ? C3C HEM 601 F 1 HETATM 25 C C4C HEM . . . N 2 183.962 215.445 267.867 1 27.78 ? C4C HEM 601 F 1 HETATM 26 C CMC HEM . . . N 2 180.654 216.78 269.084 1 27.78 ? CMC HEM 601 F 1 HETATM 27 C CAC HEM . . . N 2 183.17 217.908 267.372 1 27.78 ? CAC HEM 601 F 1 HETATM 28 C CBC HEM . . . N 2 182.183 218.808 267.356 1 27.78 ? CBC HEM 601 F 1 HETATM 29 C C1D HEM . . . N 2 186.276 214.769 267.57 1 27.78 ? C1D HEM 601 F 1 HETATM 30 C C2D HEM . . . N 2 187.639 214.98 267.138 1 27.78 ? C2D HEM 601 F 1 HETATM 31 C C3D HEM . . . N 2 188.404 214.044 267.702 1 27.78 ? C3D HEM 601 F 1 HETATM 32 C C4D HEM . . . N 2 187.555 213.206 268.517 1 27.78 ? C4D HEM 601 F 1 HETATM 33 C CMD HEM . . . N 2 188.11 216.098 266.187 1 27.78 ? CMD HEM 601 F 1 HETATM 34 C CAD HEM . . . N 2 189.926 213.886 267.529 1 27.78 ? CAD HEM 601 F 1 HETATM 35 C CBD HEM . . . N 2 190.217 212.855 266.448 1 27.78 ? CBD HEM 601 F 1 HETATM 36 C CGD HEM . . . N 2 191.696 212.84 266.182 1 27.78 ? CGD HEM 601 F 1 HETATM 37 O O1D HEM . . . N 2 192.15 212.015 265.35 1 27.78 ? O1D HEM 601 F 1 HETATM 38 O O2D HEM . . . N 2 192.422 213.654 266.804 1 27.78 ? O2D HEM 601 F 1 HETATM 39 N NA HEM . . . N 2 185.716 211.157 269.588 1 27.78 ? NA HEM 601 F 1 HETATM 40 N NB HEM . . . N 2 182.976 211.894 269.874 1 27.78 ? NB HEM 601 F 1 HETATM 41 N NC HEM . . . N 2 183.476 214.337 268.524 1 27.78 ? NC HEM 601 F 1 HETATM 42 N ND HEM . . . N 2 186.265 213.678 268.41 1 27.78 ? ND HEM 601 F 1 HETATM 43 FE FE HEM . . . N 2 184.605 212.763 269.081 1 27.78 ? FE HEM 601 F 1 HETATM 44 H HHB HEM . . . N 2 183.669 208.725 270.442 1 27.78 ? HHB HEM 601 F 1 HETATM 45 H HHC HEM . . . N 2 180.54 214.108 269.986 1 27.78 ? HHC HEM 601 F 1 HETATM 46 H HHD HEM . . . N 2 185.323 216.281 266.631 1 27.78 ? HHD HEM 601 F 1 HETATM 47 H HMA HEM . . . N 2 186.802 207.133 270.585 1 27.78 ? HMA HEM 601 F 1 HETATM 48 H HMAA HEM . . . N 2 186.642 207.784 272.038 1 27.78 ? HMAA HEM 601 F 1 HETATM 49 H HMAB HEM . . . N 2 185.345 207.46 271.16 1 27.78 ? HMAB HEM 601 F 1 HETATM 50 H HAA HEM . . . N 2 189.437 210.126 270.854 1 27.78 ? HAA HEM 601 F 1 HETATM 51 H HAAA HEM . . . N 2 188.897 208.679 271.21 1 27.78 ? HAAA HEM 601 F 1 HETATM 52 H HBA HEM . . . N 2 189.025 208.04 268.974 1 27.78 ? HBA HEM 601 F 1 HETATM 53 H HBAA HEM . . . N 2 189.438 209.509 268.549 1 27.78 ? HBAA HEM 601 F 1 HETATM 54 H HMB HEM . . . N 2 180.595 208.447 270.079 1 27.78 ? HMB HEM 601 F 1 HETATM 55 H HMBA HEM . . . N 2 181.629 208.377 271.276 1 27.78 ? HMBA HEM 601 F 1 HETATM 56 H HMBB HEM . . . N 2 180.193 208.998 271.507 1 27.78 ? HMBB HEM 601 F 1 HETATM 57 H HAB HEM . . . N 2 178.986 212.626 270.703 1 27.78 ? HAB HEM 601 F 1 HETATM 58 H HBB HEM . . . N 2 177.493 210.927 271.011 1 27.78 ? HBB HEM 601 F 1 HETATM 59 H HBBA HEM . . . N 2 178.565 209.872 270.275 1 27.78 ? HBBA HEM 601 F 1 HETATM 60 H HMC HEM . . . N 2 180.242 216.33 269.838 1 27.78 ? HMC HEM 601 F 1 HETATM 61 H HMCA HEM . . . N 2 180.863 217.692 269.334 1 27.78 ? HMCA HEM 601 F 1 HETATM 62 H HMCB HEM . . . N 2 180.037 216.776 268.336 1 27.78 ? HMCB HEM 601 F 1 HETATM 63 H HAC HEM . . . N 2 184.013 218.135 266.973 1 27.78 ? HAC HEM 601 F 1 HETATM 64 H HBC HEM . . . N 2 181.275 218.503 267.207 1 27.78 ? HBC HEM 601 F 1 HETATM 65 H HBCA HEM . . . N 2 182.404 219.725 267.132 1 27.78 ? HBCA HEM 601 F 1 HETATM 66 H HMD HEM . . . N 2 189.041 215.943 265.926 1 27.78 ? HMD HEM 601 F 1 HETATM 67 H HMDA HEM . . . N 2 187.545 216.103 265.386 1 27.78 ? HMDA HEM 601 F 1 HETATM 68 H HMDB HEM . . . N 2 188.036 216.963 266.641 1 27.78 ? HMDB HEM 601 F 1 HETATM 69 H HAD HEM . . . N 2 190.314 214.738 267.278 1 27.78 ? HAD HEM 601 F 1 HETATM 70 H HADA HEM . . . N 2 190.315 213.59 268.367 1 27.78 ? HADA HEM 601 F 1 HETATM 71 H HBD HEM . . . N 2 189.931 211.979 266.749 1 27.78 ? HBD HEM 601 F 1 HETATM 72 H HBDA HEM . . . N 2 189.742 213.092 265.637 1 27.78 ? HBDA HEM 601 F 1 HETATM 73 H HHA HEM . . . N 2 188.905 211.953 269.345 1 27.78 ? HHA HEM 601 F 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 67 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 73 #